genome.fa.s8310.2.7.7.80.10.50.1000.3.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008310.1 Hibiscus syriacus cultivar Beakdansim tig00111000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3887810

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  3  of  15  ( 1695 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522215--522257	22	2.0	22	86	4	61	23	13	9	53	1.69
523455--523484	11	2.7	11	94	0	51	40	20	0	40	1.52
523665--523696	10	3.1	11	91	8	50	21	0	0	78	0.76
526469--526515	8	5.9	8	82	7	60	80	2	12	4	0.94
526469--526556	7	12.1	7	73	14	56	78	2	15	3	0.99
526469--526556	15	5.5	15	75	15	70	78	2	15	3	0.99
526480--526556	11	6.7	12	68	23	58	79	1	16	2	0.92
526482--526547	20	3.4	20	74	24	61	80	1	15	3	0.91
528474--528735	54	4.8	54	86	3	319	31	9	17	41	1.82
528474--528844	54	6.8	54	82	6	318	30	10	16	41	1.83
528477--528735	110	2.4	108	85	3	340	31	10	16	41	1.82
528476--528801	165	2.0	164	82	3	395	31	10	16	41	1.82
534241--534425	50	3.8	49	77	10	191	28	12	14	44	1.82
534864--534911	18	2.7	18	76	0	51	29	35	2	33	1.69
544670--544774	39	2.7	39	85	2	122	33	14	23	28	1.94
545773--545928	62	2.5	62	86	2	215	28	21	15	33	1.94
545981--546364	137	2.8	136	87	3	522	28	25	17	28	1.97
547118--547193	29	2.6	29	77	4	73	28	6	22	42	1.78
547180--547227	25	1.9	25	95	0	87	33	6	4	56	1.44
547246--547302	29	1.9	30	89	3	89	33	5	17	43	1.71
554406--554461	29	1.9	29	81	0	67	33	7	21	37	1.81
558268--558310	15	2.7	16	82	17	54	34	4	0	60	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559489--559540	20	2.4	21	81	9	61	59	0	0	40	0.97
559867--560037	89	1.9	90	84	8	213	56	4	3	35	1.37
561840--561880	17	2.3	18	91	4	66	31	0	0	68	0.90
565246--565345	46	2.2	46	96	0	182	32	8	24	36	1.84
573351--573434	45	1.9	43	85	4	114	38	15	28	17	1.91
574564--575022	134	3.4	134	84	4	577	33	23	15	26	1.95
579923--579974	19	2.8	20	77	11	65	48	0	0	51	1.00
582321--582364	22	2.0	23	82	13	56	54	2	6	36	1.40
583853--583921	36	1.9	36	84	0	93	30	1	5	62	1.27
586333--586413	32	2.6	32	78	2	83	29	29	22	18	1.97
587281--587352	26	2.7	27	89	4	110	25	12	22	40	1.89
588550--588579	13	2.2	14	94	5	53	40	0	13	46	1.43
590891--590929	20	1.9	20	89	5	60	15	25	38	20	1.92
594629--594668	15	2.7	15	96	0	71	37	12	2	47	1.55
602014--602051	19	2.1	19	85	5	51	57	0	5	36	1.21
615741--616180	220	2.0	220	92	0	736	32	8	13	45	1.73
629919--630560	327	1.9	328	93	5	1103	32	11	18	37	1.86
632561--632621	21	2.9	21	73	11	61	26	31	26	16	1.96
632995--633025	10	3.1	10	95	0	53	32	0	9	58	1.31
650868--650922	28	2.0	28	82	3	67	38	1	10	49	1.49
655985--656030	10	4.4	10	84	10	56	32	2	10	54	1.47
665637--665677	21	1.9	22	85	5	57	46	19	2	31	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
671230--671272	3	13.7	3	85	4	50	62	0	0	37	0.95
671243--671284	20	2.2	19	87	12	59	69	2	0	28	1.01
671612--672350	223	3.3	225	89	3	1088	27	20	14	37	1.92
672296--672340	23	1.9	23	82	13	56	15	24	6	53	1.66
671612--672350	110	6.7	113	89	3	1074	27	20	14	37	1.92
673093--673162	20	3.3	21	84	6	97	37	15	11	35	1.84
678038--678087	10	4.9	10	80	4	55	0	18	0	82	0.68
678038--678072	11	3.2	11	95	0	61	0	11	0	88	0.51
678361--678424	2	33.0	2	93	6	114	48	0	0	51	1.00
682190--682423	118	2.0	115	85	5	310	46	8	7	37	1.62
682448--682484	17	2.1	18	85	14	51	62	0	2	35	1.10
683802--683836	13	2.7	13	100	0	70	14	20	34	31	1.92
683876--683938	3	21.0	3	78	12	67	65	1	0	33	1.03
685631--685668	9	3.8	10	80	13	51	68	0	0	31	0.90
696268--696325	23	2.5	23	85	0	80	18	17	22	41	1.90
696240--696369	57	2.3	57	83	0	161	20	19	22	38	1.93
696483--696541	26	2.2	27	84	3	75	47	22	0	30	1.51
696798--696835	20	1.9	20	88	0	58	60	7	10	21	1.54
696934--696979	20	2.3	19	85	7	56	60	6	2	30	1.34
698437--698462	13	2.0	13	100	0	52	23	23	30	23	1.99
699425--699485	31	2.0	32	87	6	90	34	4	11	49	1.61
711058--711092	18	1.9	18	88	11	54	22	2	20	54	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
715775--715817	18	2.4	18	80	7	52	0	34	6	58	1.25
722317--722354	15	2.5	15	95	0	67	31	21	18	28	1.97
725373--725492	54	2.2	54	89	2	188	29	20	18	31	1.96
728509--728900	54	7.3	54	83	3	425	28	18	19	33	1.95
728533--728900	162	2.3	162	84	6	476	29	18	18	33	1.95
729232--729276	22	2.2	20	84	8	54	31	17	15	35	1.92
732553--732599	24	2.0	24	87	8	69	23	2	0	74	0.93
733331--733445	38	3.3	38	72	20	140	38	5	6	49	1.52
733369--733474	29	3.3	29	69	20	86	36	3	9	50	1.53
733330--733563	67	3.5	67	88	5	337	39	5	6	47	1.53
733354--733600	35	7.1	34	67	23	117	39	5	6	48	1.53
735868--735926	28	2.1	28	100	0	118	40	13	16	28	1.87
737679--737826	77	1.9	78	82	8	185	43	5	10	40	1.61
740407--740940	267	2.0	267	100	0	1068	38	14	17	28	1.89
744671--744713	19	2.3	18	80	4	50	44	6	2	46	1.43
744701--744762	22	3.0	20	71	19	63	43	0	0	56	0.99
749599--749743	63	2.3	63	86	6	190	49	1	8	40	1.41
749730--749827	29	3.3	29	80	10	110	57	0	2	40	1.10
753703--753788	24	3.8	24	70	17	85	29	15	18	37	1.91
756807--756892	27	3.2	27	93	0	145	27	10	27	33	1.90
757641--757736	42	2.2	41	82	8	111	48	1	1	48	1.15
758508--758554	20	2.3	20	92	0	76	36	21	19	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
758721--758777	21	2.6	22	91	2	89	22	42	15	19	1.89
760747--760804	21	2.8	20	76	2	71	31	22	18	27	1.97
771884--771910	11	2.5	11	100	0	54	40	11	14	33	1.82
776170--776222	23	2.5	21	76	17	56	50	5	1	41	1.36
783979--784040	6	10.8	6	73	13	51	41	20	16	20	1.90
784056--784081	13	2.0	13	100	0	52	23	15	30	30	1.95
784128--785346	608	2.0	610	97	0	2293	30	20	25	23	1.98
788172--788329	77	2.0	78	82	4	194	38	10	13	37	1.78
790246--790296	25	2.0	26	88	3	77	54	7	3	33	1.47
794610--794640	3	10.3	3	92	0	53	64	0	0	35	0.94
796872--796902	16	1.9	16	93	0	53	29	6	6	58	1.48
798428--798470	14	3.2	14	93	6	72	18	20	13	46	1.83
799219--799266	25	1.9	25	91	0	78	12	8	18	60	1.57
802298--802348	16	3.4	16	71	17	56	49	31	0	19	1.49
802726--802854	36	3.5	37	83	8	147	32	16	8	42	1.78
802884--803061	66	2.7	65	79	7	189	26	18	12	42	1.86
803552--803618	3	22.3	3	100	0	134	32	0	0	67	0.91
807156--807186	2	15.5	2	100	0	62	48	0	0	51	1.00
809790--809826	17	2.1	18	90	10	58	59	0	27	13	1.35
811706--811754	24	2.0	25	84	11	66	55	4	4	36	1.38
815627--815652	2	13.0	2	100	0	52	50	0	0	50	1.00
815981--816036	3	18.7	3	100	0	112	0	33	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
818900--819629	360	2.0	360	91	1	1185	33	17	13	35	1.89
821185--821455	54	5.0	54	88	0	391	33	22	18	24	1.97
824280--824492	45	4.7	45	85	3	268	30	20	9	38	1.85
824280--824529	90	2.8	89	83	4	243	30	21	10	37	1.87
824263--824529	135	2.0	134	81	6	308	30	21	10	37	1.86
824979--825032	22	2.6	20	77	11	63	25	29	12	31	1.93
825123--825195	3	24.0	3	83	2	92	35	1	1	61	1.13
826759--826801	21	2.0	21	86	8	61	41	6	0	51	1.29
832310--832367	13	4.8	12	76	19	59	84	0	15	0	0.62
832310--832368	31	1.9	31	89	6	93	84	0	15	0	0.62

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15